[R] RMySQL install on windows

[Gabor Grothendieck]

On Tue, Oct 9, 2012 at 5:08 PM, Robert Baer <rbaer at atsu.edu> wrote:
> I have been trying to install RMySQL on Windows 7 following the procedure
> at:
> http://biostat.mc.vanderbilt.edu/wiki/Main/RMySQL
>
> I think I have properly installed RTools and created a proper Renviron.site
> file saying:
> MYSQL_HOME="C:/Program Files/MySQL/MySQL Server 5.5"
>
> When I try to install the packages from source, I get warnings that suggest
> I'm still not quite "with the program" yet. There are comments about POSIX
> paths that I don't quite grasp. Can anyone give me additional hints?
>
> There seems to be a libmysql.dll in the /lib subdirectory although the
> install seems to be looking in the /bin directory for a file of similar
> name. Is this something that has changed with recent versions of MySQL that
> should be fixed in the RMySQL package or is it something I can work around
> by hand or by properly setting some environmental variable?
>
> Thanks,
>
> Rob
>
> The errors ...
>
>> install.packages('RMySQL',type='source')
> trying URL 'http://cran.wustl.edu/src/contrib/RMySQL_0.9-3.tar.gz'
> Content type 'application/x-gzip' length 165363 bytes (161 Kb)
> opened URL
> downloaded 161 Kb
>
> * installing *source* package 'RMySQL' ...
> ** package 'RMySQL' successfully unpacked and MD5 sums checked
> checking for $MYSQL_HOME... C:/Program Files/MySQL/MySQL Server 5.5
> cygwin warning:
> MS-DOS style path detected: C:/Program
> Preferred POSIX equivalent is: /cygdrive/c/Program
> CYGWIN environment variable option "nodosfilewarning" turns off this
> warning.
> Consult the user's guide for more details about POSIX paths:
> http://cygwin.com/cygwin-ug-net/using.html#using-pathnames
> test: Files/MySQL/MySQL: unknown operand
> ** libs
> Warning: this package has a non-empty 'configure.win' file,
> so building only the main architecture
>
> cygwin warning:
> MS-DOS style path detected: C:/PROGRA~1/R/R-215~1.1/etc/x64/Makeconf
> Preferred POSIX equivalent is:
> /cygdrive/c/PROGRA~1/R/R-215~1.1/etc/x64/Makeconf
> CYGWIN environment variable option "nodosfilewarning" turns off this
> warning.
> Consult the user's guide for more details about POSIX paths:
> http://cygwin.com/cygwin-ug-net/using.html#using-pathnames
> gcc -m64 -I"C:/PROGRA~1/R/R-215~1.1/include" -DNDEBUG -I"C:/Program
> Files/MySQL/MySQL Server 5.5"/include
> -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99
> -mtune=core2 -c RS-DBI.c -o RS-DBI.o
> RS-DBI.c: In function 'RS_na_set':
> RS-DBI.c:1219:11: warning: variable 'c' set but not used
> [-Wunused-but-set-variable]
> gcc -m64 -I"C:/PROGRA~1/R/R-215~1.1/include" -DNDEBUG -I"C:/Program
> Files/MySQL/MySQL Server 5.5"/include
> -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99
> -mtune=core2 -c RS-MySQL.c -o RS-MySQL.o
> RS-MySQL.c: In function 'RS_MySQL_fetch':
> RS-MySQL.c:657:13: warning: variable 'fld_nullOk' set but not used
> [-Wunused-but-set-variable]
> RS-MySQL.c: In function 'RS_DBI_invokeBeginGroup':
> RS-MySQL.c:1137:30: warning: variable 'val' set but not used
> [-Wunused-but-set-variable]
> RS-MySQL.c: In function 'RS_DBI_invokeNewRecord':
> RS-MySQL.c:1158:20: warning: variable 'val' set but not used
> [-Wunused-but-set-variable]
> RS-MySQL.c: In function 'RS_MySQL_dbApply':
> RS-MySQL.c:1219:38: warning: variable 'fld_nullOk' set but not used
> [-Wunused-but-set-variable]
> gcc -m64 -shared -s -static-libgcc -o RMySQL.dll tmp.def RS-DBI.o RS-MySQL.o
> C:/Program Files/MySQL/MySQL Server 5.5/bin/libmySQL.dll
> -Ld:/RCompile/CRANpkg/extralibs64/local/lib/x64
> -Ld:/RCompile/CRANpkg/extralibs64/local/lib
> -LC:/PROGRA~1/R/R-215~1.1/bin/x64 -lR
> gcc.exe: error: C:/Program Files/MySQL/MySQL Server 5.5/bin/libmySQL.dll: No
> such file or directory
> ERROR: compilation failed for package 'RMySQL'
> * removing 'C:/Program Files/R/R-2.15.1/library/RMySQL'
>
> The downloaded source packages are in
> ‘C:\Users\rbaer\AppData\Local\Temp\Rtmps9adPQ\downloaded_packages’
> Warning messages:
> 1: running command 'C:/PROGRA~1/R/R-215~1.1/bin/x64/R CMD INSTALL -l
> "C:/Program Files/R/R-2.15.1/library"
> C:\Users\rbaer\AppData\Local\Temp\Rtmps9adPQ/downloaded_packages/RMySQL_0.9-3.tar.gz'
> had status 1
> 2: In install.packages("RMySQL", type = "source") :
> installation of package ‘RMySQL’ had non-zero exit status
>> R.Version()
> $platform
> [1] "x86_64-pc-mingw32"
>
> $arch
> [1] "x86_64"
>
> $os
> [1] "mingw32"
>
> $system
> [1] "x86_64, mingw32"
>
> $status
> [1] ""
>
> $major
> [1] "2"
>
> $minor
> [1] "15.1"
>
> $year
> [1] "2012"
>
> $month
> [1] "06"
>
> $day
> [1] "22"
>
> $`svn rev`
> [1] "59607"
>
> $language
> [1] "R"
>
> $version.string
> [1] "R version 2.15.1 (2012-06-22)"
>
> $nickname
> [1] "Roasted Marshmallows"
>
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> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.

Most people who have problems have them because they followed
instructions on the internet rather than the ones that come with the
package.  Go to:
http://cran.r-project.org/web/packages/RMySQL/index.html
and click on the Installation link (or download the source and read
the INSTALL file).

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